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Sample GSM9081 Query DataSets for GSM9081
Status Public on Jan 20, 2004
Title c 4-1
Sample type RNA
 
Channel 1
Source name ID:c 4-1, Genotype=(C57BL/6J), Treatment= none
Organism Mus musculus
Extracted molecule total RNA
 
Channel 2
Source name common reference RNA (from mouse liver,spleen and kidney)
Organism Mus musculus
Extracted molecule total RNA
 
 
Description Total RNA from whole kidney was hybridized
Keywords = diabetes mouse models diabetic nephropathy streptozotocin db/db
 
Submission date Aug 13, 2003
Last update date May 28, 2005
Contact name Weijia Zhang
E-mail(s) [email protected]
Phone 718-430-3616
Fax 718-430-2732
URL http://www.aecom.yu.edu/BottingerLab/
Organization name Albert Einstein College of Medicine
Department Medicine
Lab Nephrology
Street address 1300 Morris Park Ave
City Bronx
State/province NY
ZIP/Postal code 10461
Country USA
 
Platform ID GPL409
Series (1)
GSE710 diabetic nephropathy streptozotocin db db

Data table header descriptions
ID_REF
VALUE log (base 2) transform of the ratio of the background subtracted means after lowess within and between chip normalization.
QUAL 1 means the quality of the spot is good, 0 means the quality of the spot is not good
Block the block number of the feature.
Column the column number of the feature.
Row the row number of the feature.
X the X-coordinate in �m of the center of the feature-indicator associated with the feature, where (0,0) is the top left of the image.
Y the Y-coordinate in �m of the center of the feature-indicator associated with the feature, where (0,0) is the top left of the image.
Dia. the diameter in �m of the feature-indicator.
F635 Median
F635 Mean
F635 SD
B635 Median
B635 Mean
B635 SD
% > B635+1SD the percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength #1 (635 nm).
% > B635+2SD the percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength #1 (635 nm).
F635 % Sat. the percentage of feature pixels at wavelength #1 that are saturated.
F532 Median median feature pixel intensity at wavelength #2 (532 nm).
F532 Mean mean feature pixel intensity at wavelength #2 (532 nm).
F532 SD the standard deviation of the feature intensity at wavelength #2 (532 nm).
B532 Median the median feature background intensity at wavelength #2 (532 nm).
B532 Mean the mean feature background intensity at wavelength #2 (532 nm).
B532 SD the standard deviation of the feature background intensity at wavelength #2 (532 nm).
% > B532+1SD the percentage of feature pixels with intensities more than one standard deviation above the background pixel intensity, at wavelength #2 (532 nm).
% > B532+2SD the percentage of feature pixels with intensities more than two standard deviations above the background pixel intensity, at wavelength #2 (532 nm).
F532 % Sat. the percentage of feature pixels at wavelength #2 that are saturated.
Ratio of Medians the ratio of the median intensities of each feature for each wavelength, with the median background subtracted.
Ratio of Means the ratio of the arithmetic mean intensities of each feature for each wavelength, with the median background subtracted.
Median of Ratios the median of pixel-by-pixel ratios of pixel intensities, with the median background subtracted.
Mean of Ratios the geometric mean of the pixel-by-pixel ratios of pixel intensities, with the median background subtracted.
Ratios SD the geometric standard deviation of the pixel intensity ratios.
Rgn Ratio the regression ratio of every pixel in a 2-feature-diameter circle around the center of the feature.
Rgn R.
F Pixels the total number of feature pixels.
B Pixels the total number of background pixels.
Sum of Medians the sum of the median intensities for each wavelength, with the median background subtracted.
Sum of Means the sum of the arithmetic mean intensities for each wavelength, with the median background subtracted.
Log Ratio
F635 Median - B635 the median feature pixel intensity at wavelength #1 with the median background subtracted.
F532 Median - B532 the median feature pixel intensity at wavelength #2 with the median background subtracted.
F635 Mean - B635 the mean feature pixel intensity at wavelength #1 with the median background subtracted.
F532 Mean - B532 the mean feature pixel intensity at wavelength #2 with the median background subtracted.
Flags the type of flag associated with a feature.

Data table
ID_REF VALUE QUAL Block Column Row X Y Dia. F635 Median F635 Mean F635 SD B635 Median B635 Mean B635 SD % > B635+1SD % > B635+2SD F635 % Sat. F532 Median F532 Mean F532 SD B532 Median B532 Mean B532 SD % > B532+1SD % > B532+2SD F532 % Sat. Ratio of Medians Ratio of Means Median of Ratios Mean of Ratios Ratios SD Rgn Ratio Rgn R. F Pixels B Pixels Sum of Medians Sum of Means Log Ratio F635 Median - B635 F532 Median - B532 F635 Mean - B635 F532 Mean - B532 Flags
1 1 1 1 1870 18740 100 228 234 47 245 284 125 0 0 0 128 138 39 151 184 105 0 0 0 0.739 0.846 1.033 1.746 2.258 1.113 0.789 80 459 -40 -24 -0.436 -17 -23 -11 -13 -50
2 2.917795e-01 1 1 2 1 2030 18660 120 49321 37617 24055 289 332 149 100 100 6 33648 24512 15428 191 219 111 100 100 0 1.466 1.535 1.528 1.564 0.617 1.519 0.969 120 617 82489 61649 0.551 49032 33457 37328 24321 0
3 1.113154e+00 1 1 3 1 2200 18750 90 2633 2650 1466 206 218 65 100 98 0 1303 1321 613 118 133 49 100 100 0 2.048 2.032 1.983 1.962 0.572 2.109 0.935 52 389 3612 3647 1.034 2427 1185 2444 1203 0
4 -2.186695e+00 1 1 4 1 2360 18650 70 456 460 85 185 185 35 100 100 0 1438 1482 256 108 114 44 100 100 0 0.204 0.200 0.201 0.199 0.044 0.186 0.855 32 236 1601 1649 -2.295 271 1330 275 1374 0
5 -4.131836e-02 1 1 5 1 2530 18740 90 3060 3156 1341 167 170 31 100 100 0 3367 3417 1430 101 105 27 100 100 0 0.886 0.901 0.890 0.902 0.276 0.889 0.956 52 420 6159 6305 -0.175 2893 3266 2989 3316 0
6 -5.290790e-01 1 1 6 1 2700 18650 70 1159 1212 333 169 170 28 100 100 0 1564 1678 469 110 112 30 100 100 0 0.681 0.665 0.649 0.674 0.139 0.611 0.892 32 236 2444 2611 -0.555 990 1454 1043 1568 0
7 7.762885e-01 1 1 7 1 2860 18730 80 1030 1022 325 183 186 37 100 100 0 652 632 219 117 121 34 98 96 0 1.583 1.629 1.632 1.800 0.776 1.531 0.926 52 338 1382 1354 0.663 847 535 839 515 0
8 -3.907187e-01 1 1 8 1 3020 18640 110 3440 2933 1340 196 222 106 100 100 0 4971 3982 1855 131 146 68 100 100 0 0.670 0.711 0.719 0.759 0.263 0.692 0.951 80 560 8084 6588 -0.577 3244 4840 2737 3851 0
9 0 1 9 1 3180 18740 100 192 195 32 190 208 93 1 0 0 148 152 40 123 139 66 16 1 0 0.080 0.172 0.582 3.273 8.071 0.102 0.011 80 479 27 34 -3.644 2 25 5 29 -50
10 -3.565622e-01 1 1 10 1 3360 18640 90 2191 2121 307 176 177 33 100 100 0 2912 2786 483 113 117 33 100 100 0 0.720 0.728 0.735 0.749 0.187 0.689 0.943 52 411 4814 4618 -0.474 2015 2799 1945 2673 0
11 -1.545782e-01 1 1 11 1 3510 18730 80 836 786 187 172 172 31 100 100 0 881 833 210 108 114 34 100 100 0 0.859 0.847 0.845 0.891 0.428 0.828 0.873 52 338 1437 1339 -0.219 664 773 614 725 0
12 -1.303956e+00 1 1 12 1 3680 18640 90 832 822 101 167 169 35 100 100 0 1820 1778 260 119 128 41 100 100 0 0.391 0.395 0.397 0.402 0.071 0.388 0.936 52 420 2366 2314 -1.355 665 1701 655 1659 0
13 1.230867e-01 1 1 13 1 3850 18740 70 1930 1945 162 155 159 31 100 100 0 1852 1849 170 95 99 28 100 100 0 1.010 1.021 1.000 1.029 0.135 0.990 0.938 32 236 3532 3544 0.015 1775 1757 1790 1754 0
14 9.894891e-01 1 1 14 1 4010 18630 100 8035 6390 3087 153 154 30 100 100 0 4004 3249 1574 93 96 28 100 100 0 2.015 1.976 1.957 2.122 0.814 1.934 0.964 80 512 11793 9393 1.011 7882 3911 6237 3156 0
15 0 1 15 1 4170 18740 100 150 147 29 144 145 27 22 2 0 81 80 20 82 86 24 10 1 0 -6.000 -1.500 1.385 3.475 7.709 -0.018 0.000 80 445 5 1 Error 6 -1 3 -2 -50
16 0 1 16 1 4330 18640 100 151 151 29 136 138 27 30 7 0 76 79 17 76 79 22 15 1 0 100000.000 5.000 1.241 2.863 6.323 0.055 0.002 80 486 15 18 16.610 15 0 15 3 -50
17 0 1 17 1 4500 18730 100 153 154 32 131 134 26 47 16 0 80 87 26 73 76 23 28 12 0 3.143 1.643 1.542 3.312 4.834 -0.003 0.000 80 478 29 37 1.652 22 7 23 14 -50
18 1.375331e+00 1 1 18 1 4660 18650 80 367 374 124 134 136 28 100 100 0 175 196 94 74 79 22 94 88 0 2.307 1.967 2.004 2.338 1.113 1.427 0.703 52 330 334 362 1.206 233 101 240 122 0
19 0 1 19 1 4820 18730 100 173 178 43 150 154 34 35 20 0 120 128 52 83 92 50 41 12 0 0.622 0.622 0.742 3.111 12.560 0.440 0.234 80 469 60 73 -0.686 23 37 28 45 -50
20 -1.778333e+00 1 1 20 1 4980 18640 90 2224 2150 539 151 154 31 100 100 0 7522 7371 1852 82 85 26 100 100 0 0.279 0.274 0.276 0.276 0.049 0.271 0.956 52 405 9513 9288 -1.844 2073 7440 1999 7289 0

Total number of rows: 9568

Table truncated, full table size 1758 Kbytes.




Supplementary data files not provided
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